Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 315 of 325
Found at i:101443163 original size:17 final size:17
Alignment explanation
Indices: 101443141--101443179 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
101443131 CCCAAAGGTG
*
101443141 ATTTTA-TCTTTTTTATT
1 ATTTTACTCTTATTT-TT
101443158 ATTTTACTCTTATTTTT
1 ATTTTACTCTTATTTTT
101443175 ATTTT
1 ATTTT
101443180 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTACTCTTATTTTT
Found at i:101443265 original size:13 final size:11
Alignment explanation
Indices: 101443232--101443256 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
101443222 TATATACATC
101443232 ATAATAAAAAT
1 ATAATAAAAAT
101443243 ATAATAAAAAT
1 ATAATAAAAAT
101443254 ATA
1 ATA
101443257 TATACAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAAAAAT
Found at i:101443915 original size:11 final size:11
Alignment explanation
Indices: 101443891--101443932 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
101443881 TTCTAATACG
101443891 TATATATATAT
1 TATATATATAT
* *
101443902 TATATGTATTT
1 TATATATATAT
101443913 TATATAT-TAT
1 TATATATATAT
101443923 GTATATATAT
1 -TATATATAT
101443933 TTTTTTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 2 0.08
11 22 0.88
12 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (11 bp):
TATATATATAT
Found at i:101443919 original size:22 final size:22
Alignment explanation
Indices: 101443891--101443935 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
101443881 TTCTAATACG
*
101443891 TATATATATAT-TATATGTATTT
1 TATATAT-TATGTATATATATTT
101443913 TATATATTATGTATATATATTT
1 TATATATTATGTATATATATTT
101443935 T
1 T
101443936 TTTAAATGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TATATATTATGTATATATATTT
Found at i:101444133 original size:23 final size:25
Alignment explanation
Indices: 101444107--101444158 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
101444097 AACTATTATT
*
101444107 ATATTAGTGTATAT-TTTA-TGTAC
1 ATATTAGTGTATATATATATTGTAC
101444130 ATA-T-GTGTATATATATATTGTAC
1 ATATTAGTGTATATATATATTGTAC
101444153 ATATTA
1 ATATTA
101444159 TTATTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 8 0.33
22 4 0.17
23 11 0.46
24 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.50
Consensus pattern (25 bp):
ATATTAGTGTATATATATATTGTAC
Found at i:101451385 original size:23 final size:23
Alignment explanation
Indices: 101451336--101451379 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
101451326 ACATAACTCG
*
101451336 GACCTGGACGGATACACGGATCC
1 GACCTCGACGGATACACGGATCC
*
101451359 GACCTCGACGGATACATGGAT
1 GACCTCGACGGATACACGGAT
101451380 TTGACCCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.16
Consensus pattern (23 bp):
GACCTCGACGGATACACGGATCC
Found at i:101451601 original size:20 final size:20
Alignment explanation
Indices: 101451576--101451644 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
101451566 AGTCATAGTA
101451576 GTCGACACATATAATGTCTC
1 GTCGACACATATAATGTCTC
*
101451596 GTCGACACATATAGTGTCTC
1 GTCGACACATATAATGTCTC
101451616 GTCGACACATATAATGTCTC
1 GTCGACACATATAATGTCTC
*
101451636 ATCGACACA
1 GTCGACACA
101451645 CAGTCAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (20 bp):
GTCGACACATATAATGTCTC
Found at i:101453055 original size:15 final size:15
Alignment explanation
Indices: 101453014--101453055 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
101453004 TTTCCTAATC
101453014 ACTCTTAATTAAATTAA
1 ACTC-TAATT-AATTAA
*
101453031 ACT-TACTTAATTAA
1 ACTCTAATTAATTAA
101453045 ACTCTAATTAA
1 ACTCTAATTAA
101453056 CCACTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 9 0.41
15 10 0.45
17 3 0.14
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (15 bp):
ACTCTAATTAATTAA
Found at i:101455107 original size:46 final size:46
Alignment explanation
Indices: 101455055--101455229 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
101455045 ATTTGGGCAT
*
101455055 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
101455101 CCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
101455146 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 --CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
101455194 CTGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
101455230 CCAGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 4 0.04
46 61 0.55
47 28 0.25
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:101455160 original size:93 final size:93
Alignment explanation
Indices: 101455050--101455221 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
101455040 AGGATATTTG
* *
101455050 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
101455115 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
101455143 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
101455208 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
101455222 ACTTATGGCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:101456877 original size:23 final size:23
Alignment explanation
Indices: 101456851--101456898 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
101456841 TTTGATGCAC
*
101456851 ATCAGTTTACAGTTTCAATAATT
1 ATCAATTTACAGTTTCAATAATT
**
101456874 ATCAATTTACAGTTTTGATAATT
1 ATCAATTTACAGTTTCAATAATT
101456897 AT
1 AT
101456899 TAGCAGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (23 bp):
ATCAATTTACAGTTTCAATAATT
Found at i:101457345 original size:29 final size:29
Alignment explanation
Indices: 101457313--101457371 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
101457303 AGCTTTGGTC
101457313 TTTCTCCTTATCTTTCCTTT-TTCTTTCTT
1 TTTC-CCTTATCTTTCCTTTGTTCTTTCTT
* * *
101457342 TTTCCCTTCTGTTTCGTTTGTTCTTTCTT
1 TTTCCCTTATCTTTCCTTTGTTCTTTCTT
101457371 T
1 T
101457372 CTTTTCTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.02, C:0.25, G:0.05, T:0.68
Consensus pattern (29 bp):
TTTCCCTTATCTTTCCTTTGTTCTTTCTT
Found at i:101458102 original size:30 final size:27
Alignment explanation
Indices: 101458063--101458117 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 27
101458053 ATGATGTTAT
101458063 AATTATAACGTGTAATATTAACAATAATAA
1 AATTATAACG-G-AA-ATTAACAATAATAA
*
101458093 AATTTTAACGGAAATTAACAATAAT
1 AATTATAACGGAAATTAACAATAAT
101458118 CATCTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 12 0.50
28 2 0.08
29 1 0.04
30 9 0.38
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTATAACGGAAATTAACAATAATAA
Found at i:101458458 original size:27 final size:26
Alignment explanation
Indices: 101458416--101458521 Score: 81
Period size: 27 Copynumber: 4.0 Consensus size: 26
101458406 AGGAGGTTAC
101458416 AAATTAAGATAATTAAGAATTTAAATT
1 AAATT-AGATAATTAAGAATTTAAATT
* * *
101458443 AAATTAGAATATTTAA-AGTTTTAATTT
1 AAATTAG-ATAATTAAGA-ATTTAAATT
* * * *
101458470 ATATAAGATAATTAGGAGTTTAAATT
1 AAATTAGATAATTAAGAATTTAAATT
* *
101458496 AAATTAATATAATTAA-AATTTTAATT
1 AAATT-AGATAATTAAGAATTTAAATT
101458522 TATTTAAAAA
Statistics
Matches: 60, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
26 27 0.45
27 33 0.55
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (26 bp):
AAATTAGATAATTAAGAATTTAAATT
Found at i:101458500 original size:53 final size:53
Alignment explanation
Indices: 101458420--101458524 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
101458410 GGTTACAAAT
* *
101458420 TAAGATAATTAAGAATTTAAATTAAATTAGA-ATATTTAAAGTTTTAATTTATA
1 TAAGATAATTAAGAATTTAAATTAAATTA-ATATAATTAAAATTTTAATTTATA
* *
101458473 TAAGATAATTAGGAGTTTAAATTAAATTAATATAATTAAAATTTTAATTTAT
1 TAAGATAATTAAGAATTTAAATTAAATTAATATAATTAAAATTTTAATTTAT
101458525 TTAAAAAGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 1 0.02
53 46 0.98
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (53 bp):
TAAGATAATTAAGAATTTAAATTAAATTAATATAATTAAAATTTTAATTTATA
Found at i:101459625 original size:168 final size:167
Alignment explanation
Indices: 101459342--101459849 Score: 741
Period size: 168 Copynumber: 3.0 Consensus size: 167
101459332 CTTTGGGAAC
* * * * *
101459342 TCATGTTTATGTTCCTTATCCTCATCTAGT-TTTTCCTTGCACTCAGGTATTTTTGGATATTCGG
1 TCATCTTTATGTTCCTTATCCTCATCT--TCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
** *
101459406 CTTTATGTTTCTCGTGCCCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
64 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
* * * *
101459471 TCTTCGTGCTCTTTCGATTCGTGTGACTCCTGGCACTCT
129 TCTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
* * * *
101459510 TCATCTTTATGTTTCTTA-CTCTTATCTTCCTTTTCCTTGTACTCGGGTATTTCCGAATATTCGA
1 TCATCTTTATGTTCCTTATC-CTCATCTT-CTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
* * *
101459574 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCGTTTGGGGAACTCGGGTTTTTCTTTCTCGTAT
64 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
* *
101459639 TCTTCGTGCTCCTTCGATTCACGTGATTCGTGGTACTCT
129 TCTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
* *
101459678 TCATTTTTATGTTCCTTATCCTCATCTTGTTTGTCCTTGTACTCGGGTATTTTCGGATATTCGAC
1 TCATCTTTATGTTCCTTATCCTCATCTTCTTT-TCCTTGTACTCGGGTATTTTCGGATATTCGAC
*
101459743 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTATCGTACT
65 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
101459808 CTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
130 CTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
101459846 TCAT
1 TCAT
101459850 GATGTTTGCA
Statistics
Matches: 302, Mismatches: 33, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
166 1 0.00
167 4 0.01
168 296 0.98
169 1 0.00
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (167 bp):
TCATCTTTATGTTCCTTATCCTCATCTTCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGACT
TCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACTC
TTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
Found at i:101464070 original size:19 final size:16
Alignment explanation
Indices: 101464032--101464063 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
101464022 TGGACTAAGC
101464032 CACTCAGATAATAATA
1 CACTCAGATAATAATA
101464048 CACTCAGATAATAATA
1 CACTCAGATAATAATA
101464064 ACGCACTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
CACTCAGATAATAATA
Found at i:101471541 original size:23 final size:23
Alignment explanation
Indices: 101471511--101471556 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
101471501 AACTCGGATT
*
101471511 TGGACGGATACACGGATCCGACC
1 TGGACGGATACACAGATCCGACC
101471534 TGGACGGATACACAGATCCGACC
1 TGGACGGATACACAGATCCGACC
101471557 CACACACCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.13
Consensus pattern (23 bp):
TGGACGGATACACAGATCCGACC
Found at i:101471771 original size:20 final size:20
Alignment explanation
Indices: 101471746--101471794 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
101471736 AGTCATAGTA
*
101471746 GTCGACATATATAGTGTCTC
1 GTCGACACATATAGTGTCTC
101471766 GTCGACACATATAGTGTCTC
1 GTCGACACATATAGTGTCTC
*
101471786 ATCGACACA
1 GTCGACACA
101471795 CAGTCGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (20 bp):
GTCGACACATATAGTGTCTC
Found at i:101474168 original size:23 final size:23
Alignment explanation
Indices: 101474137--101474184 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
101474127 TTTTATGCAC
*
101474137 ATCAGTTTACAGTTTC-AGTAATT
1 ATCAATTTACAGTTTCGA-TAATT
101474160 ATCAATTTACAGTTTCGATAATT
1 ATCAATTTACAGTTTCGATAATT
101474183 AT
1 AT
101474185 TAGCAGATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (23 bp):
ATCAATTTACAGTTTCGATAATT
Found at i:101474623 original size:11 final size:10
Alignment explanation
Indices: 101474607--101474679 Score: 56
Period size: 11 Copynumber: 6.8 Consensus size: 10
101474597 GTCTTTCTCC
101474607 TTTTCTTTCCT
1 TTTTCTTT-CT
101474618 TTTTCTTTCT
1 TTTTCTTTCT
*
101474628 TTTTCCCTTCT
1 TTTT-CTTTCT
* *
101474639 GTTTCGTTTGT
1 TTTTC-TTTCT
101474650 TCTTTCTTTCT
1 T-TTTCTTTCT
*
101474661 TTTCTATTTCT
1 TTT-TCTTTCT
*
101474672 ATTTCTTT
1 TTTTCTTT
101474680 TATTTTATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
10 13 0.27
11 32 0.65
12 4 0.08
ACGTcount: A:0.03, C:0.22, G:0.04, T:0.71
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:101474632 original size:29 final size:29
Alignment explanation
Indices: 101474600--101474658 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
101474590 AGCTTTGGTC
*
101474600 TTTCTCCTTTTCTTTCCTTT-TTCTTTCTT
1 TTTC-CCTTCTCTTTCCTTTGTTCTTTCTT
* *
101474629 TTTCCCTTCTGTTTCGTTTGTTCTTTCTT
1 TTTCCCTTCTCTTTCCTTTGTTCTTTCTT
101474658 T
1 T
101474659 CTTTTCTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.00, C:0.25, G:0.05, T:0.69
Consensus pattern (29 bp):
TTTCCCTTCTCTTTCCTTTGTTCTTTCTT
Found at i:101475259 original size:3 final size:3
Alignment explanation
Indices: 101475236--101475325 Score: 53
Period size: 3 Copynumber: 30.7 Consensus size: 3
101475226 TAGCAACACA
* * * **
101475236 AAT AAT AA- AAT AAC ACT -AT AAT AA- AAT AAA AAT AAT AAT AAT AGG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
101475281 AAT AAT AAT ACT ATTT AAT AAT GAT AAT AAT ATAT AGT AA- AAT AA
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AA
101475326 CAGAAAAAGA
Statistics
Matches: 64, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
2 7 0.11
3 52 0.81
4 5 0.08
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:101475389 original size:30 final size:27
Alignment explanation
Indices: 101475350--101475404 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 27
101475340 ATGATGTTAT
101475350 AATTATAACGTGTAATATTAACAATAATAA
1 AATTATAACG-G-AA-ATTAACAATAATAA
*
101475380 AATTTTAACGGAAATTAACAATAAT
1 AATTATAACGGAAATTAACAATAAT
101475405 CATCTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 12 0.50
28 2 0.08
29 1 0.04
30 9 0.38
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTATAACGGAAATTAACAATAATAA
Found at i:101475745 original size:27 final size:26
Alignment explanation
Indices: 101475703--101475808 Score: 81
Period size: 27 Copynumber: 4.0 Consensus size: 26
101475693 AGGAGGTTAC
101475703 AAATTAAGATAATTAAGAATTTAAATT
1 AAATT-AGATAATTAAGAATTTAAATT
* * *
101475730 AAATTAGAATATTTAA-AGTTTTAATTT
1 AAATTAG-ATAATTAAGA-ATTTAAATT
* * * *
101475757 ATATAAGATAATTAGGAGTTTAAATT
1 AAATTAGATAATTAAGAATTTAAATT
* *
101475783 AAATTAATATAATTAA-AATTTTAATT
1 AAATT-AGATAATTAAGAATTTAAATT
101475809 TATTTAAAAA
Statistics
Matches: 60, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
26 27 0.45
27 33 0.55
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (26 bp):
AAATTAGATAATTAAGAATTTAAATT
Found at i:101475787 original size:53 final size:53
Alignment explanation
Indices: 101475707--101475811 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
101475697 GGTTACAAAT
* *
101475707 TAAGATAATTAAGAATTTAAATTAAATTAGA-ATATTTAAAGTTTTAATTTATA
1 TAAGATAATTAAGAATTTAAATTAAATTA-ATATAATTAAAATTTTAATTTATA
* *
101475760 TAAGATAATTAGGAGTTTAAATTAAATTAATATAATTAAAATTTTAATTTAT
1 TAAGATAATTAAGAATTTAAATTAAATTAATATAATTAAAATTTTAATTTAT
101475812 TTAAAAAGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 1 0.02
53 46 0.98
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (53 bp):
TAAGATAATTAAGAATTTAAATTAAATTAATATAATTAAAATTTTAATTTATA
Found at i:101476912 original size:168 final size:167
Alignment explanation
Indices: 101476629--101477136 Score: 748
Period size: 168 Copynumber: 3.0 Consensus size: 167
101476619 CTTTGGGAAC
* * ** * *
101476629 TCATGTTTATGTTCCTTATCCTCATCTTGTTTTTCCTTACACTCAGGTATTTTCGGATATTCGGC
1 TCATCTTTATGTTCCTTATCCTCATCTT-CTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
** *
101476694 TTTATGTTTCTCGTGCCCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
65 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
* * * *
101476759 CTTCGTGCTCTTTCGATTCGTGTGACTCTTGGCACTCT
130 CTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
* * * *
101476797 TCATCTTTATGTTTCTTA-CTCTTATCTTCCTTTTCCTTGTACTCGGGTATTTCCGAATATTCGA
1 TCATCTTTATGTTCCTTATC-CTCATCTT-CTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
* * *
101476861 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCGTTTGGGGAACTCGGGTTTTTCTTTCTCGTAT
64 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
* *
101476926 TCTTCGTGCTCCTTCGATTCACGTGATTCGTGGTACTCT
129 TCTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
* *
101476965 TCATTTTTATGTTCCTTATCCTCATCTTGTTTGTCCTTGTACTCGGGTATTTTCGGATATTCGAC
1 TCATCTTTATGTTCCTTATCCTCATCTTCTTT-TCCTTGTACTCGGGTATTTTCGGATATTCGAC
*
101477030 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTATCGTACT
65 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
101477095 CTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
130 CTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
101477133 TCAT
1 TCAT
101477137 GATGTTTGCA
Statistics
Matches: 302, Mismatches: 35, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
167 4 0.01
168 297 0.98
169 1 0.00
ACGTcount: A:0.11, C:0.24, G:0.18, T:0.46
Consensus pattern (167 bp):
TCATCTTTATGTTCCTTATCCTCATCTTCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGACT
TCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACTC
TTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
Found at i:101481211 original size:46 final size:46
Alignment explanation
Indices: 101481158--101481333 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
101481148 TATTTGGGCA
*
101481158 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
101481204 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
101481251 TCCGAGCTCGTTGAGTTGATTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
101481297 CCCGAACTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
101481334 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.59
47 26 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:101481313 original size:93 final size:93
Alignment explanation
Indices: 101481154--101481326 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
101481144 GGGATATTTG
* * *
101481154 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
101481219 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
101481247 GGCATCCGAGCTCGTTGAGTTGATTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
101481312 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
101481327 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:101484555 original size:63 final size:63
Alignment explanation
Indices: 101484480--101484605 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
101484470 ACATGGGCAT
101484480 GCCACACGGGCATGTGGGCCCATTTTTCTGACATTCTCCCTAAGGTCGCACAGGTCGTTCTAA
1 GCCACACGGGCATGTGGGCCCATTTTTCTGACATTCTCCCTAAGGTCGCACAGGTCGTTCTAA
*
101484543 GCCACACGGGCATGTGGGCCCATTTTTCTGACATTCTCCCTAAGGTTGCACAGGTCGTTCTAA
1 GCCACACGGGCATGTGGGCCCATTTTTCTGACATTCTCCCTAAGGTCGCACAGGTCGTTCTAA
101484606 TTGACTGTGG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.28
Consensus pattern (63 bp):
GCCACACGGGCATGTGGGCCCATTTTTCTGACATTCTCCCTAAGGTCGCACAGGTCGTTCTAA
Found at i:101486039 original size:19 final size:18
Alignment explanation
Indices: 101486015--101486050 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
101486005 CCCCTGTTCT
101486015 AAATTTAAAAAATAATAAA
1 AAATTTAAAAAA-AATAAA
*
101486034 AAATTTAATAAAAATAA
1 AAATTTAAAAAAAATAA
101486051 TTAGGGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATTTAAAAAAAATAAA
Found at i:101489142 original size:29 final size:29
Alignment explanation
Indices: 101489075--101489248 Score: 78
Period size: 26 Copynumber: 6.4 Consensus size: 29
101489065 TAAAATGTAA
* *
101489075 AATAATATATAAATATATAAATATTATGT
1 AATAATATATAAATATATAAATAATAAGT
* *
101489104 GATAAAATAT-AATATAATAAATAATAAGT
1 AATAATATATAAATAT-ATAAATAATAAGT
* *
101489133 AATGATATATGTTAAA-ATATATATTAAT-A-T
1 AAT-A-ATAT-ATAAATATATA-AATAATAAGT
* * *
101489163 GATAATAGA-AAA-ATATGAAGTAAT-A-T
1 AATAATATATAAATATAT-AAATAATAAGT
101489189 AAT-ATA-ATAAA-ATATAAAT-A-AA-T
1 AATAATATATAAATATATAAATAATAAGT
101489212 AATAATATA-AAATATAT-AATACATAA--
1 AATAATATATAAATATATAAATA-ATAAGT
101489238 AATAATATATA
1 AATAATATATA
101489249 TACAATTTAA
Statistics
Matches: 115, Mismatches: 14, Indels: 34
0.71 0.09 0.21
Matches are distributed among these distances:
23 6 0.05
24 13 0.11
25 15 0.13
26 26 0.23
27 4 0.03
28 8 0.07
29 22 0.19
30 4 0.03
31 7 0.06
32 8 0.07
33 2 0.02
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (29 bp):
AATAATATATAAATATATAAATAATAAGT
Found at i:101489149 original size:80 final size:81
Alignment explanation
Indices: 101489028--101489220 Score: 196
Period size: 80 Copynumber: 2.4 Consensus size: 81
101489018 TGAAAAAAAT
* * * *
101489028 ATATAATAGATAAT-AATAATATGAAATAATATATTGTTAAAATGTAAAATAATAT-ATAAATAT
1 ATATAAT--ATAATAAATAATAAGTAATAATATATTGTTAAAATATAAAATAATATGAT-AATAG
* * * *
101489091 ATAAATATTATGTGATAAA
63 AAAAATATGAAGTAATAAA
* * *
101489110 ATATAATATAATAAATAATAAGTAATGATATA-TGTTAAAATATATATTAATATGATAATAGAAA
1 ATATAATATAATAAATAATAAGTAATAATATATTGTTAAAATATAAAATAATATGATAATAGAAA
*
101489174 AATATGAAGTAATATA
66 AATATGAAGTAATAAA
* * *
101489190 ATATAATAAAATATA-AATAAATAATAATATA
1 ATATAATATAATAAATAATAAGTAATAATATA
101489221 AAATATATAA
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
79 14 0.15
80 54 0.58
81 18 0.19
82 7 0.08
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (81 bp):
ATATAATATAATAAATAATAAGTAATAATATATTGTTAAAATATAAAATAATATGATAATAGAAA
AATATGAAGTAATAAA
Found at i:101489193 original size:5 final size:5
Alignment explanation
Indices: 101489183--101489250 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
101489173 AAATATGAAG
* *
101489183 TAATA TAATA TAATA AAATA TAA-A TAAATAA TAATA TAAAA T-ATA TAATACA
1 TAATA TAATA TAATA TAATA TAATA T-AAT-A TAATA TAATA TAATA TAAT--A
*
101489235 TAAAA TAATA T-ATA TA
1 TAATA TAATA TAATA TA
101489251 CAATTTAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
4 9 0.18
5 32 0.64
6 3 0.06
7 6 0.12
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (5 bp):
TAATA
Found at i:101489216 original size:21 final size:22
Alignment explanation
Indices: 101489145--101489250 Score: 72
Period size: 24 Copynumber: 4.5 Consensus size: 22
101489135 TGATATATGT
* *
101489145 TAAAATATATATTAATATGATAA
1 TAAAATATATAATAA-ATAATAA
*
101489168 TAGAAAAATATGAAGTAATATAATATAA
1 TA-AAATATAT-AA-TAA-AT-A-ATAA
101489196 TAAAATATA-AATAAATAATAATA
1 TAAAATATATAATAAATAAT-A-A
*
101489219 TAAAATATATAATACATAA-AA
1 TAAAATATATAATAAATAATAA
*
101489240 TAATATATATA
1 TAAAATATATA
101489251 CAATTTAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
21 13 0.19
22 3 0.04
23 14 0.20
24 18 0.26
25 3 0.04
26 6 0.09
27 6 0.09
28 6 0.09
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (22 bp):
TAAAATATATAATAAATAATAA
Found at i:101489241 original size:26 final size:25
Alignment explanation
Indices: 101489145--101489246 Score: 104
Period size: 26 Copynumber: 4.1 Consensus size: 25
101489135 TGATATATGT
* *
101489145 TAAAATATATATTAATATGATAATA
1 TAAAATATATAATAATATAATAATA
*
101489170 GAAAA-ATATGAAGTAATATAAT-ATAA
1 TAAAATATAT-AA-TAATATAATAAT-A
101489196 TAAAATATA-AATAA-ATAATAATA
1 TAAAATATATAATAATATAATAATA
*
101489219 TAAAATATATAATACATAAAATAATA
1 TAAAATATATAATA-ATATAATAATA
101489245 TA
1 TA
101489247 TATACAATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
23 15 0.23
24 13 0.20
25 10 0.16
26 23 0.36
27 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (25 bp):
TAAAATATATAATAATATAATAATA
Found at i:101491586 original size:21 final size:20
Alignment explanation
Indices: 101491561--101491625 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
101491551 TAGCCTTCGG
101491561 GCTTCTGTTTAGCACTTATGT
1 GCTTC-GTTTAGCACTTATGT
** *
101491582 GCTTCAATTAGC-CTT-TGG
1 GCTTCGTTTAGCACTTATGT
101491600 GCTTCCGTTTAGCACTTATGT
1 GCTT-CGTTTAGCACTTATGT
101491621 GCTTC
1 GCTTC
101491626 AGTTAGATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
18 6 0.17
19 9 0.26
20 9 0.26
21 11 0.31
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (20 bp):
GCTTCGTTTAGCACTTATGT
Found at i:101491593 original size:39 final size:39
Alignment explanation
Indices: 101491543--101491631 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
101491533 GCTCTGATGA
*
101491543 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
101491582 GCTTCAATTAGCCTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
101491621 GCTTCAGTTAG
1 GCTTCAGTTAG
101491632 ATTTCGGGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:101500303 original size:206 final size:206
Alignment explanation
Indices: 101499944--101500498 Score: 900
Period size: 206 Copynumber: 2.7 Consensus size: 206
101499934 AAATCTACTT
* *
101499944 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * * *
101500009 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCTATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
101500074 GGATCTGTTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTACTATGTGTCTGCCCTCCGTCGAATATG
101500139 GAGACGCCAAA
196 GAGACGCCAAA
*
101500150 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
101500215 GTGAAAGCTAAATCAAG-TATGAT-TTCTATTTGTTCCTTGTAAACACAAGGATGCCAAATCATC
66 GTGAAAGCCAAATC-AGCTATG-TCTTCTATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
101500278 TTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTACTATGTGTCTGCCCTCCGTCGAATA
129 TTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTACTATGTGTCTGCCCTCCGTCGAATA
101500343 TGGAGACGCCAAA
194 TGGAGACGCCAAA
* * *
101500356 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
101500421 GTGAAAGCCAAATCAGCTATGTCTT-TGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCT-ATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
101500485 TGGATCTTGCTTCA
130 TGGATC-TGCTTCA
101500499 CCCAGATCTG
Statistics
Matches: 322, Mismatches: 21, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
205 4 0.01
206 308 0.96
207 10 0.03
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCTATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTACTATGTGTCTGCCCTCCGTCGAATATG
GAGACGCCAAA
Found at i:101512431 original size:21 final size:22
Alignment explanation
Indices: 101512398--101512441 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
101512388 ATAAGATAAT
*
101512398 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
101512420 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
101512441 A
1 A
101512442 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:101512660 original size:8 final size:8
Alignment explanation
Indices: 101512647--101512827 Score: 80
Period size: 8 Copynumber: 23.1 Consensus size: 8
101512637 TAAAATGTAA
101512647 AATAATAT
1 AATAATAT
101512655 AATAATAT
1 AATAATAT
*
101512663 AAAAATAT
1 AATAATAT
101512671 -ATAA-AT
1 AATAATAT
* *
101512677 ATTATGTGAT
1 AATA-AT-AT
101512687 AA-AA-AT
1 AATAATAT
101512693 -ATAATAT
1 AATAATAT
101512700 AATAA-AT
1 AATAATAT
*
101512707 AATAA-GT
1 AATAATAT
*
101512714 AATTATAT
1 AATAATAT
** *
101512722 -ATGTTAA
1 AATAATAT
101512729 AAT-ATAT
1 AATAATAT
*
101512736 ATTAATAT
1 AATAATAT
* *
101512744 GATAATAG
1 AATAATAT
*
101512752 AAAAATAT
1 AATAATAT
101512760 GAAGTAATAT
1 -AA-TAATAT
101512770 AAT-ATAAT
1 AATAAT-AT
101512778 AA-AATAT
1 AATAATAT
101512785 AAATAA-AT
1 -AATAATAT
101512793 AATAATAT
1 AATAATAT
*
101512801 AAAATATAT
1 AATA-ATAT
*
101512810 AATACATAA
1 AATA-ATAT
101512819 AATAATAT
1 AATAATAT
101512827 A
1 A
101512828 TATACAATTT
Statistics
Matches: 128, Mismatches: 27, Indels: 36
0.67 0.14 0.19
Matches are distributed among these distances:
5 1 0.01
6 6 0.05
7 36 0.28
8 56 0.44
9 21 0.16
10 8 0.06
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (8 bp):
AATAATAT
Found at i:101512677 original size:50 final size:49
Alignment explanation
Indices: 101512595--101512710 Score: 114
Period size: 50 Copynumber: 2.3 Consensus size: 49
101512585 ATACATGAAA
* * *
101512595 AAAAT-ATATAGATAATAATAATAATATGAAATAATATAT-TG-TTAAAATGT
1 AAAATAATATA-ATAAT-ATAAAAATATGAAAT-AT-TATGTGATAAAAATAT
*
101512645 AAAATAATATAATAATATAAAAATATATAAATATTATGTGATAAAAATAT
1 AAAATAATATAATAATATAAAAATAT-GAAATATTATGTGATAAAAATAT
*
101512695 AATATAATA-AATAATA
1 AAAATAATATAATAATA
101512711 AGTAATTATA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
48 3 0.05
49 20 0.35
50 29 0.51
51 5 0.09
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (49 bp):
AAAATAATATAATAATATAAAAATATGAAATATTATGTGATAAAAATAT
Found at i:101512774 original size:5 final size:5
Alignment explanation
Indices: 101512764--101512831 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
101512754 AAATATGAAG
* *
101512764 TAATA TAATA TAATA AAATA TAA-A TAAATAA TAATA TAAAA T-ATA TAATACA
1 TAATA TAATA TAATA TAATA TAATA T-AAT-A TAATA TAATA TAATA TAAT--A
*
101512816 TAAAA TAATA T-ATA TA
1 TAATA TAATA TAATA TA
101512832 CAATTTAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
4 9 0.18
5 32 0.64
6 3 0.06
7 6 0.12
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (5 bp):
TAATA
Found at i:101512797 original size:89 final size:89
Alignment explanation
Indices: 101512595--101512799 Score: 211
Period size: 89 Copynumber: 2.3 Consensus size: 89
101512585 ATACATGAAA
* *
101512595 AAAATATATAGATAATAATAATAATATGAAATAATATATTGTTAAAATGTAAAATAATATAATAA
1 AAAA-ATATA-AT-ATAATAATAATAAGAAATAATATATTGTTAAAATATAAAATAATATAATAA
* * * *
101512660 TATAAAAATATATAAATATTATGTGAT
63 TAGAAAAATATATAAATATAATATAAT
* * * * *
101512687 AAAAATATAATATAATAAATAATAAGTAATTATATA-TGTTAAAATATATATTAATATGATAATA
1 AAAAATATAATATAAT-AATAATAAGAAATAATATATTGTTAAAATATAAAATAATATAATAATA
101512751 GAAAAATATGA-AGTAATATAATATAAT
65 GAAAAATAT-ATA--AATATAATATAAT
101512778 -AAAATATAA-ATAAATAATAATA
1 AAAAATATAATAT-AATAATAATA
101512800 TAAAATATAT
Statistics
Matches: 97, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
89 47 0.48
90 31 0.32
91 15 0.15
92 4 0.04
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (89 bp):
AAAAATATAATATAATAATAATAAGAAATAATATATTGTTAAAATATAAAATAATATAATAATAG
AAAAATATATAAATATAATATAAT
Found at i:101512818 original size:7 final size:7
Alignment explanation
Indices: 101512648--101512829 Score: 59
Period size: 7 Copynumber: 26.4 Consensus size: 7
101512638 AAAATGTAAA
101512648 ATAATAT
1 ATAATAT
101512655 AATAATAT
1 -ATAATAT
*
101512663 AAAAATAT
1 -ATAATAT
101512671 ATAA-AT
1 ATAATAT
* *
101512677 ATTATGT
1 ATAATAT
*
101512684 GATAA-AA
1 -ATAATAT
101512691 AT-ATAAT
1 ATAAT-AT
*
101512698 ATAATAA
1 ATAATAT
101512705 ATAATA-
1 ATAATAT
101512711 AGTAAT-T
1 A-TAATAT
101512718 AT-ATAT
1 ATAATAT
* *
101512724 GTTAAAAT
1 -ATAATAT
101512732 AT-ATAT
1 ATAATAT
101512738 -TAATAT
1 ATAATAT
*
101512744 GATAATAG
1 -ATAATAT
*
101512752 A-AAAAT
1 ATAATAT
101512758 ATGAAGTAAT
1 AT-AA-T-AT
101512768 ATAATAT
1 ATAATAT
*
101512775 AATAAAAT
1 -ATAATAT
101512783 ATAA-AT
1 ATAATAT
101512789 A-AATA-
1 ATAATAT
101512794 ATAATAT
1 ATAATAT
*
101512801 AAAATAT
1 ATAATAT
*
101512808 ATAATAC
1 ATAATAT
101512815 ATAA-A-
1 ATAATAT
101512820 ATAATAT
1 ATAATAT
101512827 ATA
1 ATA
101512830 TACAATTTAA
Statistics
Matches: 130, Mismatches: 21, Indels: 47
0.66 0.11 0.24
Matches are distributed among these distances:
5 11 0.08
6 31 0.24
7 46 0.35
8 36 0.28
9 2 0.02
10 4 0.03
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (7 bp):
ATAATAT
Found at i:101512818 original size:21 final size:20
Alignment explanation
Indices: 101512773--101512831 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
101512763 GTAATATAAT
*
101512773 ATAATAAAATATAA-ATA-A
1 ATAATAAAATAAAATATATA
*
101512791 ATAATAATATAAAATATATA
1 ATAATAAAATAAAATATATA
*
101512811 ATACATAAAATAATATATATA
1 ATA-ATAAAATAAAATATATA
101512832 CAATTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.35
19 3 0.09
20 4 0.12
21 15 0.44
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
ATAATAAAATAAAATATATA
Found at i:101512822 original size:26 final size:25
Alignment explanation
Indices: 101512726--101512827 Score: 104
Period size: 26 Copynumber: 4.1 Consensus size: 25
101512716 TTATATATGT
* *
101512726 TAAAATATATATTAATATGATAATA
1 TAAAATATATAATAATATAATAATA
*
101512751 GAAAA-ATATGAAGTAATATAAT-ATAA
1 TAAAATATAT-AA-TAATATAATAAT-A
101512777 TAAAATATA-AATAA-ATAATAATA
1 TAAAATATATAATAATATAATAATA
*
101512800 TAAAATATATAATACATAAAATAATA
1 TAAAATATATAATA-ATATAATAATA
101512826 TA
1 TA
101512828 TATACAATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
23 15 0.23
24 13 0.20
25 10 0.16
26 23 0.36
27 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (25 bp):
TAAAATATATAATAATATAATAATA
Found at i:101520741 original size:21 final size:21
Alignment explanation
Indices: 101520713--101520768 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
101520703 TGATTTTTAC
*
101520713 TAAAACAAA-GGTTTTTTTTT
1 TAAAACAAACGGTATTTTTTT
*
101520733 TAAATACAAACTGTATTTTTTT
1 TAAA-ACAAACGGTATTTTTTT
*
101520755 TAAAATATAACGGT
1 TAAAACA-AACGGT
101520769 TTTAAGAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.14
21 7 0.24
22 18 0.62
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (21 bp):
TAAAACAAACGGTATTTTTTT
Found at i:101521176 original size:13 final size:13
Alignment explanation
Indices: 101521142--101521176 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
101521132 AGAAGAAATG
101521142 AAAGAAAAATTTC
1 AAAGAAAAATTTC
101521155 AGAAG-AAAATTTC
1 A-AAGAAAAATTTC
101521168 AAAGAAAAA
1 AAAGAAAAA
101521177 CAAAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.15
13 14 0.70
14 3 0.15
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (13 bp):
AAAGAAAAATTTC
Found at i:101521245 original size:17 final size:17
Alignment explanation
Indices: 101521223--101521256 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
101521213 ATGGTAGAAC
101521223 TAAGGAAAAAAATGTGG
1 TAAGGAAAAAAATGTGG
101521240 TAAGGAAAAAAATGTGG
1 TAAGGAAAAAAATGTGG
101521257 GAAGTGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (17 bp):
TAAGGAAAAAAATGTGG
Found at i:101521269 original size:18 final size:17
Alignment explanation
Indices: 101521224--101521260 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
101521214 TGGTAGAACT
*
101521224 AAGGAAAAAAATGTGGT
1 AAGGAAAAAAATGTGGG
101521241 AAGGAAAAAAATGTGGG
1 AAGGAAAAAAATGTGGG
101521258 AAG
1 AAG
101521261 TGAGAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.32, T:0.14
Consensus pattern (17 bp):
AAGGAAAAAAATGTGGG
Found at i:101523026 original size:53 final size:53
Alignment explanation
Indices: 101522885--101523035 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
101522875 ATAACTGCGC
* **
101522885 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
101522938 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
101522991 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
101523036 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:101529449 original size:54 final size:54
Alignment explanation
Indices: 101529359--101529461 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
101529349 AATTATGTGA
* * *
101529359 ACATGAATTGAGTTGTTAATTTTGCAAATTGGGCATGGTATGAATGATTGTATC
1 ACATGAATTAAGTTGTTAATTTTGAAAATTGAGCATGGTATGAATGATTGTATC
* * *
101529413 ACATGAGTTAAGTTGTTAATTTTGAAAACTT-AGCATGGTTTGACTGATT
1 ACATGAATTAAGTTGTTAATTTTGAAAA-TTGAGCATGGTATGAATGATT
101529462 ATATTTGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 40 0.95
55 2 0.05
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
ACATGAATTAAGTTGTTAATTTTGAAAATTGAGCATGGTATGAATGATTGTATC
Found at i:101529677 original size:33 final size:34
Alignment explanation
Indices: 101529640--101529706 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
101529630 AAGGGACCAA
* *
101529640 AATGGATGATTTTTTT-ACTTATTTGGCTTTAAG
1 AATGGAAGATTTTTTTAACCTATTTGGCTTTAAG
101529673 AATGGAAGATTTTTTTAACCTATTTGGCTTTAAG
1 AATGGAAGATTTTTTTAACCTATTTGGCTTTAAG
101529707 GTATCCATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 15 0.48
34 16 0.52
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (34 bp):
AATGGAAGATTTTTTTAACCTATTTGGCTTTAAG
Found at i:101531462 original size:14 final size:14
Alignment explanation
Indices: 101531443--101531469 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101531433 TATATGACAA
101531443 TTTAATTTGCAATT
1 TTTAATTTGCAATT
101531457 TTTAATTTGCAAT
1 TTTAATTTGCAAT
101531470 AGGAGAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (14 bp):
TTTAATTTGCAATT
Found at i:101534107 original size:12 final size:12
Alignment explanation
Indices: 101534086--101534129 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
101534076 ACACAAAAAG
*
101534086 TAAAGAAATGAA
1 TAAATAAATGAA
*
101534098 TAAATGAATGAA
1 TAAATAAATGAA
* *
101534110 TATATAAATAAA
1 TAAATAAATGAA
101534122 TAAATAAA
1 TAAATAAA
101534130 ACATAACATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (12 bp):
TAAATAAATGAA
Found at i:101534527 original size:32 final size:27
Alignment explanation
Indices: 101534462--101534517 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
101534452 AAATGGGGAA
101534462 GATTGAAAAATAAAAATCAAGCAATAG
1 GATTGAAAAATAAAAATCAAGCAATAG
101534489 GATTGAAAAATAAAAATCAAGCAATAG
1 GATTGAAAAATAAAAATCAAGCAATAG
101534516 GA
1 GA
101534518 CATAATTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.59, C:0.07, G:0.16, T:0.18
Consensus pattern (27 bp):
GATTGAAAAATAAAAATCAAGCAATAG
Found at i:101535156 original size:13 final size:13
Alignment explanation
Indices: 101535125--101535172 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
101535115 TCACCTCCAG
101535125 TTTTTTTGTATTC
1 TTTTTTTGTATTC
101535138 TATTTTTTG-ATTTC
1 T-TTTTTTGTA-TTC
*
101535152 TTTTTTTGTGTT-
1 TTTTTTTGTATTC
101535164 TTTTTTTGT
1 TTTTTTTGT
101535173 TCGATTTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.29
13 11 0.35
14 11 0.35
ACGTcount: A:0.06, C:0.04, G:0.10, T:0.79
Consensus pattern (13 bp):
TTTTTTTGTATTC
Found at i:101535697 original size:9 final size:9
Alignment explanation
Indices: 101535681--101535732 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
101535671 GGTATTTTTC
101535681 GGTAATTCG
1 GGTAATTCG
*
101535690 GTTAATTCG
1 GGTAATTCG
*
101535699 GTTAATTCG
1 GGTAATTCG
101535708 GGTAATTCG
1 GGTAATTCG
101535717 GGTAATTCG
1 GGTAATTCG
101535726 GGTAATT
1 GGTAATT
101535733 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:101535910 original size:12 final size:12
Alignment explanation
Indices: 101535893--101535917 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101535883 AGTAATTTCG
101535893 GGTCGGTTAACC
1 GGTCGGTTAACC
101535905 GGTCGGTTAACC
1 GGTCGGTTAACC
101535917 G
1 G
101535918 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:101538960 original size:69 final size:69
Alignment explanation
Indices: 101538880--101539016 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
101538870 CTCAAACTTT
*
101538880 GATCACTCTTGGGTAGACCAGCCAACTGCTTGCAAAAATTATAATGTTATATACTTTACGTATCT
1 GATCACTCTTGGGTAGACCAGCCAACTGCTTGCAAAAAGTATAATGTTATATACTTTACGTATCT
101538945 CCTG
66 CCTG
101538949 GATCACTCTTGGGTAGACCAGCCAACTGCTTGCAAAAAGTATAATGTTATATACTTTACGTATCT
1 GATCACTCTTGGGTAGACCAGCCAACTGCTTGCAAAAAGTATAATGTTATATACTTTACGTATCT
101539014 CCT
66 CCT
101539017 CACTGTCACA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (69 bp):
GATCACTCTTGGGTAGACCAGCCAACTGCTTGCAAAAAGTATAATGTTATATACTTTACGTATCT
CCTG
Found at i:101544229 original size:23 final size:24
Alignment explanation
Indices: 101544181--101544249 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
101544171 ATAAATTATT
**
101544181 TATAAAATTTAATTTATTTATAAA
1 TATAAAATTTAATTTATGAATAAA
101544205 TA-AAAATTGTAATTTATGAAT-AA
1 TATAAAATT-TAATTTATGAATAAA
* *
101544228 TATAAATTTATAATTTAAGAAT
1 TATAAAATT-TAATTTATGAAT
101544250 CGATGCTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 10 0.26
24 28 0.74
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (24 bp):
TATAAAATTTAATTTATGAATAAA
Found at i:101545721 original size:46 final size:45
Alignment explanation
Indices: 101545668--101545831 Score: 129
Period size: 46 Copynumber: 3.6 Consensus size: 45
101545658 ACCTTTTCGA
*
101545668 GTTGAACTTACACGAATCAG-ATAATAGTGCATGGTCACCTGTTAG
1 GTTGAACTTACACGAATCAGAATAATAATGC-TGGTCACCTGTTAG
* * * **
101545713 CGTTGAACTTACCCGAAT-TGAATAATAATGTTTGGTCACCCATTAGG
1 -GTTGAACTTACACGAATCAGAATAATAATG-CTGGTCACCTGTTA-G
* * *
101545760 GTTGGACTTATATGAATC-GAATAATAATGTCTGGTCACCTGTTAAG
1 GTTGAACTTACACGAATCAGAATAATAATG-CTGGTCACCTGTT-AG
* * **
101545806 GTTGGACCTACATAAATCAG-ATAATA
1 GTTGAACTTACACGAATCAGAATAATA
101545832 GTGTTTGGTT
Statistics
Matches: 96, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 92 0.96
47 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (45 bp):
GTTGAACTTACACGAATCAGAATAATAATGCTGGTCACCTGTTAG
Found at i:101545855 original size:46 final size:45
Alignment explanation
Indices: 101545732--101545863 Score: 140
Period size: 46 Copynumber: 2.9 Consensus size: 45
101545722 TACCCGAATT
* * * *
101545732 GAATAATAATGTTTGGTCACCCATTAGGGTTGGACTTATATGAATC
1 GAATAATAATGTTTGGTCA-CCGTTAGGGTTGGACCTACATAAATC
* *
101545778 GAATAATAATGTCTGGTCACCTGTTAAGGTTGGACCTACATAAATC
1 GAATAATAATGTTTGGTCACC-GTTAGGGTTGGACCTACATAAATC
* * *
101545824 -AGATAATAGTGTTTGGTTACTCGTTAGGGTTGAACCTACA
1 GA-ATAATAATGTTTGGTCAC-CGTTAGGGTTGGACCTACA
101545864 CAACATATAG
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
45 3 0.04
46 68 0.94
47 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (45 bp):
GAATAATAATGTTTGGTCACCGTTAGGGTTGGACCTACATAAATC
Found at i:101546045 original size:29 final size:29
Alignment explanation
Indices: 101546003--101546062 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
101545993 CAGGCACTCG
101546003 TCCGTAAATTTTCTTTTTTTCATCGATTA
1 TCCGTAAATTTTCTTTTTTTCATCGATTA
101546032 TCCGTAAATTTTCTTTTTTTCATCGATTA
1 TCCGTAAATTTTCTTTTTTTCATCGATTA
101546061 TC
1 TC
101546063 AACCATCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.20, C:0.18, G:0.07, T:0.55
Consensus pattern (29 bp):
TCCGTAAATTTTCTTTTTTTCATCGATTA
Found at i:101549622 original size:36 final size:36
Alignment explanation
Indices: 101549578--101549649 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
101549568 ATAGGCATAA
*
101549578 AACGTAAATCTTACCGATCATACTTTAATAAATCAT
1 AACGTAAATCTTACCGACCATACTTTAATAAATCAT
* *
101549614 AACGTAAATCTTACCGGCCATATTTTAATAAATCAT
1 AACGTAAATCTTACCGACCATACTTTAATAAATCAT
101549650 TTAACTAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (36 bp):
AACGTAAATCTTACCGACCATACTTTAATAAATCAT
Found at i:101553587 original size:11 final size:11
Alignment explanation
Indices: 101553554--101553591 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
101553544 TAAAAAATAT
101553554 TTTTTTATTA-
1 TTTTTTATTAG
*
101553564 TTTTTAATTAG
1 TTTTTTATTAG
*
101553575 TTTTTTATAAG
1 TTTTTTATTAG
101553586 TTTTTT
1 TTTTTT
101553592 GAATTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (11 bp):
TTTTTTATTAG
Found at i:101554288 original size:32 final size:29
Alignment explanation
Indices: 101554228--101554293 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
101554218 GAAGTGATGT
*
101554228 TTTTATTGTTTTTTTAATTTTTTGTACTA
1 TTTTATTGTTTTTTTAATATTTTGTACTA
*
101554257 TTTTATTGTTATTTTTCACTATTTTGCTACTA
1 TTTTATTGTT-TTTTT-AATATTTTG-TACTA
101554289 TTTTA
1 TTTTA
101554294 CTATTATGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 10 0.31
30 5 0.16
31 7 0.22
32 10 0.31
ACGTcount: A:0.18, C:0.08, G:0.06, T:0.68
Consensus pattern (29 bp):
TTTTATTGTTTTTTTAATATTTTGTACTA
Found at i:101554460 original size:25 final size:27
Alignment explanation
Indices: 101554386--101554460 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 27
101554376 TGTTAAGTTG
* *
101554386 TATTCATTTTAATATTATTTAAGTATACA
1 TATTTATTTTAATATT-TTTAAG-ATAAA
* *
101554415 TATATATTTT-TTATTTATTAA-A-AAA
1 TATTTATTTTAATATTT-TTAAGATAAA
101554440 TATTTATTTTAATATTTTTAA
1 TATTTATTTTAATATTTTTAA
101554461 TGTTTTTGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
25 15 0.39
26 6 0.16
27 1 0.03
28 8 0.21
29 8 0.21
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (27 bp):
TATTTATTTTAATATTTTTAAGATAAA
Found at i:101555121 original size:33 final size:31
Alignment explanation
Indices: 101555067--101555139 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 31
101555057 TTAAAACAAC
* *
101555067 TTATTTGAATAAAAAGTAAATATTAAATATTAG
1 TTATTTGATTAAAAAGAAAATA-TAAA-ATTAG
*
101555100 TTATTTGATTAATAAA-AAAATATAAAGTTAG
1 TTATTTGATTAA-AAAGAAAATATAAAATTAG
101555131 -TATTTGATT
1 TTATTTGATT
101555140 CCATTTGAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 9 0.25
31 4 0.11
32 4 0.11
33 16 0.44
34 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (31 bp):
TTATTTGATTAAAAAGAAAATATAAAATTAG
Found at i:101556076 original size:15 final size:15
Alignment explanation
Indices: 101556056--101556107 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
101556046 ACTACAAACA
101556056 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
101556071 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
101556090 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
101556105 ATT
1 ATT
101556108 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:101556171 original size:16 final size:16
Alignment explanation
Indices: 101556140--101556176 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
101556130 ATGTGAATAA
101556140 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
101556156 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
101556172 TATTA
1 TATTA
101556177 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:101556228 original size:22 final size:22
Alignment explanation
Indices: 101556186--101556243 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
101556176 AAAATAAAAA
*
101556186 TAAAATATTAAA-TA-ATTTAT
1 TAAAATAATAAATTATATTTAT
101556206 TAAAATAATAAATTATATTTAT
1 TAAAATAATAAATTATATTTAT
* * *
101556228 TATATTAATAATTTAT
1 TAAAATAATAAATTAT
101556244 TATATGACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.34
21 2 0.06
22 19 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAAATAATAAATTATATTTAT
Found at i:101571038 original size:41 final size:42
Alignment explanation
Indices: 101570981--101571061 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 42
101570971 AATCTCTTCC
101570981 TTTGAGTGGCTAAAATGGAAACA-TGATGCAAATGCGATGAT
1 TTTGAGTGGCTAAAATGGAAACAGTGATGCAAATGCGATGAT
*
101571022 TTTGAGTGGCTAAAATGGAAACAGTGATGCAAATGTGATG
1 TTTGAGTGGCTAAAATGGAAACAGTGATGCAAATGCGATG
101571062 GTTTAGTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 23 0.61
42 15 0.39
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (42 bp):
TTTGAGTGGCTAAAATGGAAACAGTGATGCAAATGCGATGAT
Found at i:101588233 original size:19 final size:19
Alignment explanation
Indices: 101588175--101588233 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
101588165 ATCTTTGAGG
*
101588175 AATATTATAAAAATATCGA
1 AATATTATAAAAATATCTA
** *
101588194 TGTA-T-TAACAATAT-TA
1 AATATTATAAAAATATCTA
101588210 TAATATTATAAAAATATCTA
1 -AATATTATAAAAATATCTA
101588230 AATA
1 AATA
101588234 AAAATTACAG
Statistics
Matches: 29, Mismatches: 7, Indels: 8
0.66 0.16 0.18
Matches are distributed among these distances:
16 1 0.03
17 10 0.34
18 2 0.07
19 14 0.48
20 2 0.07
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.37
Consensus pattern (19 bp):
AATATTATAAAAATATCTA
Found at i:101601698 original size:17 final size:17
Alignment explanation
Indices: 101601676--101601709 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
101601666 ACAAACAGAA
101601676 GAAAAACTCTCGTGACC
1 GAAAAACTCTCGTGACC
101601693 GAAAAACTCTCGTGACC
1 GAAAAACTCTCGTGACC
101601710 ATTCTAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (17 bp):
GAAAAACTCTCGTGACC
Found at i:101604323 original size:32 final size:32
Alignment explanation
Indices: 101604287--101604351 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
101604277 TCGAAAATGG
101604287 AAAACACTAAAGAAAACGTGTTTGATTGAAAA
1 AAAACACTAAAGAAAACGTGTTTGATTGAAAA
*
101604319 AAAACAGTAAAGAAAACGTGTTTGATTGAAAA
1 AAAACACTAAAGAAAACGTGTTTGATTGAAAA
101604351 A
1 A
101604352 TTAAAAATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.54, C:0.08, G:0.17, T:0.22
Consensus pattern (32 bp):
AAAACACTAAAGAAAACGTGTTTGATTGAAAA
Found at i:101610080 original size:19 final size:19
Alignment explanation
Indices: 101610056--101610093 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
101610046 ATTTTTCTAT
101610056 CCAAATAACGAGGCTTCTC
1 CCAAATAACGAGGCTTCTC
101610075 CCAAATAACGAGGCTTCTC
1 CCAAATAACGAGGCTTCTC
101610094 TGTTGAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (19 bp):
CCAAATAACGAGGCTTCTC
Found at i:101613931 original size:21 final size:22
Alignment explanation
Indices: 101613905--101613951 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
101613895 CTCTGCTCAA
*
101613905 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
101613926 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
101613948 ACTC
1 ACTC
101613952 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:101616847 original size:21 final size:21
Alignment explanation
Indices: 101616821--101616864 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
101616811 AATAATATTT
101616821 ATCTTTACTGGCTGAACCTTG
1 ATCTTTACTGGCTGAACCTTG
101616842 ATCTTTACTGGCTGAACCTTG
1 ATCTTTACTGGCTGAACCTTG
101616863 AT
1 AT
101616865 ATTGTTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (21 bp):
ATCTTTACTGGCTGAACCTTG
Found at i:101620187 original size:292 final size:287
Alignment explanation
Indices: 101619775--101620365 Score: 928
Period size: 302 Copynumber: 2.0 Consensus size: 287
101619765 TTATTTTTCC
101619775 ATTCTTAATTATTTTCATTAGTATTTTAGATATTATTTATCAAAATACTAATTCATTTAAAAAAT
1 ATTCTTAATTATTTTCATTAGTATTTTAGATATTATTTATCAAAATACTAATTCATTTAAAAAAT
101619840 TTTATAACTAATTTCATTTTTAAAACTAAGATTGTATTTTAATCATGACAACTTAATACGG-TAA
66 TTTATAACTAATTTCATTTTTAAAACTAAGATTGTATTTTAATCATGACAACTTAATACGGTTAA
101619904 AA-TT-TTAAGTT-TTTAAGATAATATAATTTTATTTTCATTTAAAAATTATTTTAGTAAAATAT
131 AATTTATTAAGTTATTTAAGATAATATAATTTTATTTTCATTTAAAAATTATTTTAGTAAAATAT
101619966 ATTTACTTTTTTTTAGAATTATAAAATTTTTAAAAAT-TG-AT-TAATTTAATATTTTAGTTATT
196 ATTTACTTTTTTTTAGAATTATAAAATTTTTAAAAATATGAATATAATTTAATATTTTAGTTATT
101620028 TATTAAAATTATACTCTAAATAGATTA
261 TATTAAAATTATACTCTAAATAGATTA
101620055 ATTCTTAATTATTTTCATTAGTATTTTAGATATT-TTATATCAAAATTACTAATTCAAGTCTTAA
1 ATTCTTAATTATTTTCATTAGTATTTTAGATATTATT-TATCAAAA-TACTAATTC-A-T-TTAA
*
101620119 AAAATTTTATAACTATTTTTTCATTTCATTTTTTTAAACTAAGATTGTATTTTAATCATGACAAC
61 AAAATTTTATAACTA-------ATTTCA-TTTTTAAAACTAAGATTGTATTTTAATCATGACAAC
101620184 TTAATACGGTTTTTAAAATTTATTAAGTTGAAGTTTAAGATAATATAATTTTATTTTCATTTAAA
118 TTAATACGG---TTAAAATTTATTAAGTT--A-TTTAAGATAATATAATTTTATTTTCATTTAAA
101620249 AATTATTTTAGTAAAATATATTTACTTTTTTTTAGAATTATAAAATTTTTAAAAATATGAAAATA
177 AATTATTTTAGTAAAATATATTTACTTTTTTTTAGAATTATAAAATTTTTAAAAATATG--AATA
101620314 TAATTTAATATTTTAGTTATTTATTAAAATTATACTCTAAATAGATTA
240 TAATTTAATATTTTAGTTATTTATTAAAATTATACTCTAAATAGATTA
101620362 ATTC
1 ATTC
101620366 AAAGTATTTC
Statistics
Matches: 282, Mismatches: 1, Indels: 29
0.90 0.00 0.09
Matches are distributed among these distances:
279 2 0.01
280 42 0.15
281 9 0.03
282 1 0.00
283 1 0.00
284 19 0.07
291 6 0.02
292 44 0.16
296 5 0.02
297 2 0.01
298 7 0.02
302 88 0.31
303 2 0.01
306 2 0.01
307 52 0.18
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (287 bp):
ATTCTTAATTATTTTCATTAGTATTTTAGATATTATTTATCAAAATACTAATTCATTTAAAAAAT
TTTATAACTAATTTCATTTTTAAAACTAAGATTGTATTTTAATCATGACAACTTAATACGGTTAA
AATTTATTAAGTTATTTAAGATAATATAATTTTATTTTCATTTAAAAATTATTTTAGTAAAATAT
ATTTACTTTTTTTTAGAATTATAAAATTTTTAAAAATATGAATATAATTTAATATTTTAGTTATT
TATTAAAATTATACTCTAAATAGATTA
Found at i:101622700 original size:108 final size:108
Alignment explanation
Indices: 101622522--101622721 Score: 319
Period size: 108 Copynumber: 1.9 Consensus size: 108
101622512 ATCAACTCGA
* * * * * *
101622522 TTAAGAAATTACGGATATGTTCTTCCATAATTAGAATGAGTCATATTATTTGAAGGTATTTTAAT
1 TTAAGAAATTACGGATATATCCTTCCATAAATAAAATGAGTCATATAATTCGAAGGTATTTTAAT
101622587 ATTTTCATTTTAATAAAAACCAAGAAATCGGGTACAAACTTAG
66 ATTTTCATTTTAATAAAAACCAAGAAATCGGGTACAAACTTAG
* *
101622630 TTAAGAAATTACGGATATATCCTTCCGTAAATAAAATGAGTCATATAATTCGAGGGTATTTTAAT
1 TTAAGAAATTACGGATATATCCTTCCATAAATAAAATGAGTCATATAATTCGAAGGTATTTTAAT
*
101622695 CTTTTCATTTTAATAAAAACCAAGAAA
66 ATTTTCATTTTAATAAAAACCAAGAAA
101622722 AATATGCATA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 83 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (108 bp):
TTAAGAAATTACGGATATATCCTTCCATAAATAAAATGAGTCATATAATTCGAAGGTATTTTAAT
ATTTTCATTTTAATAAAAACCAAGAAATCGGGTACAAACTTAG
Found at i:101626583 original size:58 final size:61
Alignment explanation
Indices: 101626503--101626627 Score: 161
Period size: 58 Copynumber: 2.1 Consensus size: 61
101626493 GGTAAACTAT
* *
101626503 TATAAAATAGTATCTGAATATTAATTTA-GTAAAAA-AAA-TT-AATAATTACAATATCTAAA
1 TATAAAAGAGTATCTAAATATTAA-TTAGGTAAAAATAAACTTAAATAATTACAATATCT-AA
* *
101626562 TATAAAAGA-TATCTAAATATTAATTAGGTAAAAATAAACTTAAATAATTATACTATCTAA
1 TATAAAAGAGTATCTAAATATTAATTAGGTAAAAATAAACTTAAATAATTACAATATCTAA
101626622 TATAAA
1 TATAAA
101626628 TTCAGCATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
57 3 0.05
58 20 0.34
59 11 0.19
60 10 0.17
61 14 0.24
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.35
Consensus pattern (61 bp):
TATAAAAGAGTATCTAAATATTAATTAGGTAAAAATAAACTTAAATAATTACAATATCTAA
Found at i:101633940 original size:60 final size:60
Alignment explanation
Indices: 101633863--101633976 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
101633853 AATTAATGAC
101633863 AATTTTGGTCACCAATATTTGTATATTTTGTCAAAAGT-ATCCTAATTGTATTTTTGAGAT
1 AATTTTGGTCACCAATATTTGTATATTTTGTCAAAA-TAATCCTAATTGTATTTTTGAGAT
** * **
101633923 AATTTTGGTCATTAATATTTGTATGTTTTGTCAAAATAATTTTAATTGTATTTT
1 AATTTTGGTCACCAATATTTGTATATTTTGTCAAAATAATCCTAATTGTATTTT
101633977 GAACCTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 1 0.02
60 47 0.98
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (60 bp):
AATTTTGGTCACCAATATTTGTATATTTTGTCAAAATAATCCTAATTGTATTTTTGAGAT
Found at i:101652200 original size:26 final size:26
Alignment explanation
Indices: 101652171--101652250 Score: 133
Period size: 26 Copynumber: 3.1 Consensus size: 26
101652161 TTATAAATTT
101652171 ATAACTACCAAGTAATCCTATTGCTC
1 ATAACTACCAAGTAATCCTATTGCTC
101652197 ATAACTACCAAGTAATCCTATTGCTC
1 ATAACTACCAAGTAATCCTATTGCTC
* * *
101652223 ATAACAACTAAGTAATCCTATTACTC
1 ATAACTACCAAGTAATCCTATTGCTC
101652249 AT
1 AT
101652251 CAAGCTAAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATAACTACCAAGTAATCCTATTGCTC
Found at i:101655297 original size:47 final size:47
Alignment explanation
Indices: 101655196--101655287 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
101655186 AAATATATAT
* *
101655196 AATGTT-AAAAAAATAATTGTAAGTGGATTGTAAACAATTTATGTAC
1 AATGTTAAAAAAAATAATTATAAGTGGATTGTAAACAACTTATGTAC
* *
101655242 AATGTTAAAAAAAATGATTATAGGTGGATTGTAAACAACTTATGTA
1 AATGTTAAAAAAAATAATTATAAGTGGATTGTAAACAACTTATGTA
101655288 TAGATTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 6 0.15
47 35 0.85
ACGTcount: A:0.46, C:0.04, G:0.16, T:0.34
Consensus pattern (47 bp):
AATGTTAAAAAAAATAATTATAAGTGGATTGTAAACAACTTATGTAC
Found at i:101655664 original size:22 final size:20
Alignment explanation
Indices: 101655625--101655661 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
101655615 TAATTTTTTT
101655625 AAAAATAAAAAAAATTATCA
1 AAAAATAAAAAAAATTATCA
*
101655645 AAAAAT-ATAAAAATTAT
1 AAAAATAAAAAAAATTAT
101655662 TATTTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATAAAAAAAATTATCA
Found at i:101655708 original size:9 final size:10
Alignment explanation
Indices: 101655689--101655828 Score: 53
Period size: 10 Copynumber: 14.3 Consensus size: 10
101655679 AATTTGATGT
101655689 AAACTTATAA
1 AAACTTATAA
*
101655699 AAACTATAAAA
1 AAACT-TATAA
*
101655710 AAATTTATAA
1 AAACTTATAA
* *
101655720 AAAATTATGA
1 AAACTTATAA
101655730 AAA-TT-T-A
1 AAACTTATAA
* *
101655737 TAACTTCTAA
1 AAACTTATAA
101655747 TAAA-TTATAA
1 -AAACTTATAA
101655757 AAA--TATAA
1 AAACTTATAA
* *
101655765 GAA-TAATAA
1 AAACTTATAA
*
101655774 AAACATATTTAA
1 AAAC-T-TATAA
**
101655786 AATTTTATAA
1 AAACTTATAA
*
101655796 AAACTTATTA
1 AAACTTATAA
*
101655806 AAATTCTATAA
1 AAACT-TATAA
*
101655817 AAA-TCATAA
1 AAACTTATAA
101655826 AAA
1 AAA
101655829 GTATTAAAAT
Statistics
Matches: 98, Mismatches: 22, Indels: 21
0.70 0.16 0.15
Matches are distributed among these distances:
7 3 0.03
8 10 0.10
9 19 0.19
10 42 0.43
11 19 0.19
12 5 0.05
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (10 bp):
AAACTTATAA
Found at i:101655806 original size:21 final size:22
Alignment explanation
Indices: 101655770--101655824 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
101655760 TATAAGAATA
*
101655770 ATAAAAACATATTTAAAATTTT
1 ATAAAAACATATTTAAAATTCT
*
101655792 ATAAAAACTTA-TTAAAATTCT
1 ATAAAAACATATTTAAAATTCT
101655813 ATAAAAATCATA
1 ATAAAAA-CATA
101655825 AAAAGTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAAAAACATATTTAAAATTCT
Found at i:101656334 original size:28 final size:26
Alignment explanation
Indices: 101656302--101656534 Score: 87
Period size: 28 Copynumber: 8.3 Consensus size: 26
101656292 TTTTTTTTTG
101656302 TATTTTTATAAATTTATATCAATTTTAA
1 TATTTTTATAAATTT-TAT-AATTTTAA
* * *
101656330 TATTTTAAT-ACTTTTATAATTTTTTTA
1 TATTTTTATAAATTTTATAA--TTTTAA
* * * * *
101656357 CAGTTTTTATTACTTTTAAACAATTCTAA
1 TA-TTTTTATAAATTTT--ATAATTTTAA
* *
101656386 TAATTTTTTTAATATTTAAT-ATTTTAAA
1 T-ATTTTTATAA-ATTTTATAATTTT-AA
* * *
101656414 TAATTTTTATTAATTTTATAGCTTTTAT
1 T-ATTTTTATAAATTTTATA-ATTTTAA
* *
101656442 TATTTATTATAATTTTTAT-ATTTTTA
1 TATTT-TTATAAATTTTATAATTTTAA
* *
101656468 TAATATTTATAAGTTTTTATACTATTTT-A
1 T-ATTTTTATAA-ATTTTATA--ATTTTAA
* *
101656497 TAATTTTAATAAGTTTATATCAATTTTAA
1 T-ATTTTTATAAATTT-TAT-AATTTTAA
101656526 TATTTTTAT
1 TATTTTTAT
101656535 TTTTATAATA
Statistics
Matches: 155, Mismatches: 30, Indels: 40
0.69 0.13 0.18
Matches are distributed among these distances:
25 2 0.01
26 14 0.09
27 34 0.22
28 55 0.35
29 37 0.24
30 10 0.06
31 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
TATTTTTATAAATTTTATAATTTTAA
Found at i:101656353 original size:9 final size:9
Alignment explanation
Indices: 101656303--101656534 Score: 107
Period size: 10 Copynumber: 24.9 Consensus size: 9
101656293 TTTTTTTTGT
101656303 ATTTTTATAA
1 ATTTTTAT-A
*
101656313 ATTTATATCA
1 ATTTTTAT-A
*
101656323 ATTTTAAT-
1 ATTTTTATA
*
101656331 ATTTTAAT-
1 ATTTTTATA
*
101656339 ACTTTTATA
1 ATTTTTATA
*
101656348 ATTTTTTTA
1 ATTTTTATA
101656357 CAGTTTTTATTA
1 -A-TTTTTA-TA
* * *
101656369 CTTTTAAACA
1 ATTTT-TATA
* *
101656379 ATTCTAATA
1 ATTTTTATA
*
101656388 ATTTTTTTA
1 ATTTTTATA
*
101656397 ATATTTA-A
1 ATTTTTATA
*
101656405 TATTTTAAATA
1 -ATTTT-TATA
101656416 ATTTTTATTA
1 ATTTTTA-TA
101656426 A-TTTTATA
1 ATTTTTATA
** *
101656434 GCTTTTATT
1 ATTTTTATA
101656443 ATTTATTATA
1 ATTT-TTATA
101656453 ATTTTTAT-
1 ATTTTTATA
101656461 ATTTTTATA
1 ATTTTTATA
*
101656470 ATATTTATA
1 ATTTTTATA
101656479 AGTTTTTATA
1 A-TTTTTATA
*
101656489 CTATTTTATA
1 AT-TTTTATA
*
101656499 ATTTTAATA
1 ATTTTTATA
*
101656508 AGTTTATATCA
1 A-TTTTTAT-A
*
101656519 ATTTTAAT-
1 ATTTTTATA
101656527 ATTTTTAT
1 ATTTTTAT
101656535 TTTTATAATA
Statistics
Matches: 168, Mismatches: 38, Indels: 34
0.70 0.16 0.14
Matches are distributed among these distances:
8 32 0.19
9 60 0.36
10 65 0.39
11 9 0.05
12 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (9 bp):
ATTTTTATA
Found at i:101656439 original size:19 final size:18
Alignment explanation
Indices: 101656388--101656571 Score: 97
Period size: 19 Copynumber: 9.9 Consensus size: 18
101656378 AATTCTAATA
* * *
101656388 ATTTTTTTAATATTTAAT
1 ATTTTTATAATTTTTATT
*
101656406 ATTTTAAATAATTTTTATT
1 ATTTT-TATAATTTTTATT
* **
101656425 AATTTTATAGCTTTTATT
1 ATTTTTATAATTTTTATT
101656443 ATTTATTATAATTTTTA-T
1 ATTT-TTATAATTTTTATT
* *
101656461 ATTTTTATAATATTTATA
1 ATTTTTATAATTTTTATT
* *
101656479 AGTTTTTATACTATTTTATA
1 A-TTTTTATAAT-TTTTATT
* * *
101656499 ATTTTAATAAGTTTATATC
1 ATTTTTATAA-TTTTTATT
* *
101656518 A-ATTT-TAATATTT-TT
1 ATTTTTATAATTTTTATT
*
101656533 ATTTTTATAATATTTTTTT
1 ATTTTTATAAT-TTTTATT
*
101656552 GAATTTTTAATCATTTTTAT
1 --ATTTTT-ATAATTTTTAT
101656572 GTGAAAAATA
Statistics
Matches: 125, Mismatches: 28, Indels: 23
0.71 0.16 0.13
Matches are distributed among these distances:
15 2 0.02
16 6 0.05
17 18 0.14
18 29 0.23
19 47 0.38
20 8 0.06
21 11 0.09
22 4 0.03
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTTATAATTTTTATT
Found at i:101656446 original size:37 final size:36
Alignment explanation
Indices: 101656400--101656469 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
101656390 TTTTTTAATA
101656400 TTTAATATTT-TAAATAATTTTTATTAATTTTATAGCT
1 TTTAATATTTAT-AATAATTTTTA-TAATTTTATAGCT
* * *
101656437 TTTATTATTTATTATAATTTTTATATTTTTATA
1 TTTAATATTTATAATAATTTTTATAATTTTATA
101656470 ATATTTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 9 0.31
37 19 0.66
38 1 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (36 bp):
TTTAATATTTATAATAATTTTTATAATTTTATAGCT
Found at i:101656457 original size:18 final size:17
Alignment explanation
Indices: 101656388--101656543 Score: 77
Period size: 18 Copynumber: 8.6 Consensus size: 17
101656378 AATTCTAATA
* *
101656388 ATTTTTTTAATATTTAAT
1 ATTTTTATAAT-TTTATT
*
101656406 ATTTTAAATAATTTTTATT
1 ATTTT-TATAA-TTTTATT
* *
101656425 AATTTTATAGCTTTTATT
1 ATTTTTATA-ATTTTATT
101656443 ATTTATTATAATTTT-TAT
1 ATTT-TTATAATTTTAT-T
*
101656461 ATTTTTATAATATTTATA
1 ATTTTTATAAT-TTTATT
*
101656479 AGTTTTTATACTATTTTATA
1 A-TTTTTATA--ATTTTATT
* *
101656499 ATTTTAATAAGTTTA-T
1 ATTTTTATAATTTTATT
*
101656515 ATCAATTT-TAATATTT-TT
1 AT--TTTTATAAT-TTTATT
101656533 ATTTTTATAAT
1 ATTTTTATAAT
101656544 ATTTTTTTGA
Statistics
Matches: 107, Mismatches: 16, Indels: 31
0.69 0.10 0.20
Matches are distributed among these distances:
16 5 0.05
17 20 0.19
18 39 0.36
19 33 0.31
20 8 0.07
21 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTTTTATAATTTTATT
Found at i:101656495 original size:29 final size:28
Alignment explanation
Indices: 101656448--101656548 Score: 90
Period size: 27 Copynumber: 3.8 Consensus size: 28
101656438 TTATTATTTA
101656448 TTATAATTTTTATA-T-TTTTATAATAT
1 TTATAATTTTTATACTATTTTATAATAT
101656474 TTATAAGTTTTTATACTATTTTATAAT-T
1 TTATAA-TTTTTATACTATTTTATAATAT
* *
101656502 TTAATAA-GTTTATA-TCAATTT-TAATAT
1 TT-ATAATTTTTATACT-ATTTTATAATAT
* *
101656529 TT-TTATTTTTATAATATTTT
1 TTATAATTTTTATACTATTTT
101656549 TTTGAATTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
25 2 0.03
26 21 0.34
27 22 0.35
28 4 0.06
29 13 0.21
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TTATAATTTTTATACTATTTTATAATAT
Found at i:101656859 original size:23 final size:24
Alignment explanation
Indices: 101656812--101656860 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
101656802 CTTTCCTCAA
101656812 TTAAAATAAATAATATTAGTTGTCAT
1 TTAAAATAAATAATATTA--TGTCAT
*
101656838 TTAAAATCAATAATATTA-GTCAT
1 TTAAAATAAATAATATTATGTCAT
101656861 CACTCTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
26 17 0.77
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (24 bp):
TTAAAATAAATAATATTATGTCAT
Found at i:101663896 original size:30 final size:30
Alignment explanation
Indices: 101663835--101663929 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
101663825 GTTAAAATAC
* * * * *
101663835 AATTTAAGAAAATTTTAGGGGTCTAAGTGA
1 AATTTAAGAAAAGTTTAAGAGTCAAAATGA
101663865 AATTTAA-AGAAAGTTTAAGAGTCAAAATGA
1 AATTTAAGA-AAAGTTTAAGAGTCAAAATGA
* * * * *
101663895 AAGTTAGGAAAAGTTTAGGGGTCAAAATGT
1 AATTTAAGAAAAGTTTAAGAGTCAAAATGA
101663925 AATTT
1 AATTT
101663930 TTATTTTTTG
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
29 1 0.02
30 50 0.96
31 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
AATTTAAGAAAAGTTTAAGAGTCAAAATGA
Found at i:101663954 original size:24 final size:24
Alignment explanation
Indices: 101663926--101663971 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
101663916 TCAAAATGTA
101663926 ATTTTTATTTTTTGAAAATTTTTT
1 ATTTTTATTTTTTGAAAATTTTTT
*
101663950 ATTTTTATTTTTTTAAAATTTT
1 ATTTTTATTTTTTGAAAATTTT
101663972 AAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
ATTTTTATTTTTTGAAAATTTTTT
Found at i:101665748 original size:4 final size:4
Alignment explanation
Indices: 101665739--101665766 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
101665729 TGGGATATGC
101665739 AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG
101665767 CATAAATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:101670410 original size:15 final size:16
Alignment explanation
Indices: 101670374--101670415 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
101670364 CTTTTTTTGT
101670374 TTTTTTTTTGCTGGAA
1 TTTTTTTTTGCTGGAA
**
101670390 -AATTTTTTGCT-GAA
1 TTTTTTTTTGCTGGAA
101670404 TTTTTTTTTGCT
1 TTTTTTTTTGCT
101670416 CTTTTTTCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.64
Consensus pattern (16 bp):
TTTTTTTTTGCTGGAA
Found at i:101670696 original size:30 final size:30
Alignment explanation
Indices: 101670639--101670753 Score: 117
Period size: 30 Copynumber: 3.8 Consensus size: 30
101670629 GTAATTTTTA
* * *
101670639 GAAAATTTA-GGGTTAAAATGCAATTTAAG
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
* * *
101670668 GAAAGTTTAGGGGTCTAAGTGAAATTTAAA
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
* **
101670698 GAAAGTTTAAGAATCAAAATGAAATTT-AG
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
101670727 GAAAAGTTTAGGGGTCAAAATGTAAAT
1 G-AAAGTTTAGGGGTCAAAATG-AAAT
101670754 ATTTTTTTGA
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
29 10 0.15
30 54 0.79
31 4 0.06
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (30 bp):
GAAAGTTTAGGGGTCAAAATGAAATTTAAG
Found at i:101670940 original size:3 final size:3
Alignment explanation
Indices: 101670934--101670972 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
101670924 GAACAACAAC
* *
101670934 AAT AAT AAA AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
101670973 GTAAAGATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:101672662 original size:24 final size:25
Alignment explanation
Indices: 101672629--101672677 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
101672619 TATACGTAAT
**
101672629 ATATTAAAAAGGTATACATAATATA
1 ATATTAAAAACATATACATAATATA
*
101672654 ATATT-AAAACATTTACATAATATA
1 ATATTAAAAACATATACATAATATA
101672678 TACATGTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAACATATACATAATATA
Found at i:101672800 original size:11 final size:11
Alignment explanation
Indices: 101672784--101672829 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
101672774 TAAAAGTATG
101672784 TACATAATATA
1 TACATAATATA
101672795 TACATAATATA
1 TACATAATATA
** *
101672806 TTGAAAATATA
1 TACATAATATA
101672817 TACATAATATA
1 TACATAATATA
101672828 TA
1 TA
101672830 TAATATTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (11 bp):
TACATAATATA
Found at i:101674250 original size:3 final size:3
Alignment explanation
Indices: 101674244--101674284 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
101674234 CAAAATAGAG
* * *
101674244 ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA GTT ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
101674285 GAACATATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:101677930 original size:38 final size:39
Alignment explanation
Indices: 101677858--101677996 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
101677848 GCTTTGATGA
*
101677858 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATAT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
101677897 GCTTCAGTTAGCC-TCTGGGC-TCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTC-GGGCTTCCGTTTAGCACTTATGT
* *
101677935 GCTTCAGTTAGCCTTCGAGCTTCCGTCTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
101677974 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
101677997 AGATCACGAT
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
38 35 0.39
39 55 0.61
ACGTcount: A:0.14, C:0.27, G:0.22, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:101682912 original size:12 final size:14
Alignment explanation
Indices: 101682883--101682911 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
101682873 TTTCATTTAA
101682883 TTTCTACAATTTTT
1 TTTCTACAATTTTT
101682897 TTTC-ACAATTTTT
1 TTTCTACAATTTTT
101682910 TT
1 TT
101682912 CCTTACTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTCTACAATTTTT
Found at i:101685284 original size:43 final size:42
Alignment explanation
Indices: 101685202--101685285 Score: 96
Period size: 43 Copynumber: 2.0 Consensus size: 42
101685192 GGTTTAGCCT
* * * **
101685202 ATAATGCACTTATGTGCCAGTATATTTGCTTCGGTTTGTCCG
1 ATAATGCACTCATGTGCCAGTATAATTGATTCGACTTGTCCG
* *
101685244 ATAATGCACCTCATGTGCTAGTATAATTGATTCTACTTGTCC
1 ATAATGCA-CTCATGTGCCAGTATAATTGATTCGACTTGTCC
101685286 AATGATACAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 8 0.24
43 26 0.76
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (42 bp):
ATAATGCACTCATGTGCCAGTATAATTGATTCGACTTGTCCG
Found at i:101687492 original size:5 final size:5
Alignment explanation
Indices: 101687482--101687506 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
101687472 CAAAGATCTA
101687482 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
101687507 TAAACTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:101687527 original size:7 final size:7
Alignment explanation
Indices: 101687501--101687538 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
101687491 TAAAATAAAA
101687501 TAAAA-T
1 TAAAATT
*
101687507 TAAACTT
1 TAAAATT
*
101687514 TAGAATT
1 TAAAATT
101687521 TAAAATT
1 TAAAATT
101687528 TAAAATT
1 TAAAATT
101687535 TAAA
1 TAAA
101687539 CTCTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
6 4 0.15
7 23 0.85
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (7 bp):
TAAAATT
Found at i:101687545 original size:14 final size:14
Alignment explanation
Indices: 101687501--101687547 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
101687491 TAAAATAAAA
101687501 TAAAA-TTAAACTT
1 TAAAATTTAAACTT
* *
101687514 TAGAATTTAAAATT
1 TAAAATTTAAACTT
*
101687528 TAAAATTTAAACTC
1 TAAAATTTAAACTT
101687542 TAAAAT
1 TAAAAT
101687548 AAACTAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 4 0.14
14 24 0.86
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (14 bp):
TAAAATTTAAACTT
Found at i:101690566 original size:46 final size:46
Alignment explanation
Indices: 101690514--101690819 Score: 366
Period size: 46 Copynumber: 6.6 Consensus size: 46
101690504 GCTTTTTGAA
* * *
101690514 ATGAAATGTGTAAGACCATCGTTAAAAGATACCATTACAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
*
101690560 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
* *
101690606 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
* * *
101690652 ATGAAATGTGTGAGACCATGGTTGAAAGATACCATGGA-AACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCAT-GACAACATGAT
* ** * *
101690698 ATGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGA-T
** ** *
101690745 GGGAAATGAATAAGACCATGGTTGAAAGATATCATGGA-AACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCAT-GACAACATGAT
* *
101690791 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
101690820 CACTATGGCA
Statistics
Matches: 229, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
45 2 0.01
46 187 0.82
47 39 0.17
48 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
Found at i:101693985 original size:35 final size:35
Alignment explanation
Indices: 101693940--101694102 Score: 139
Period size: 35 Copynumber: 4.5 Consensus size: 35
101693930 GTACACAATT
*
101693940 GTTGGTTTATCCGACTAGCACTGGGCGCAATTATC
1 GTTGGTTTATCCAACTAGCACTGGGCGCAATTATC
* ** *
101693975 GTTGGTTTATCCAACTAGCGCTAAGTGCAATTATC
1 GTTGGTTTATCCAACTAGCACTGGGCGCAATTATC
* *
101694010 GTTAGTTTATCCAACTAG-AGCTGGGCCTACAATTATTATC
1 GTTGGTTTATCCAACTAGCA-CTGGG-C-GC-A--ATTATC
* * * * * * *
101694050 GTCGATATATTCAACTAGCACTAGGTGCAAATATC
1 GTTGGTTTATCCAACTAGCACTGGGCGCAATTATC
101694085 GTTGGTTTATCCAACTAG
1 GTTGGTTTATCCAACTAG
101694103 GCTGGGCTCA
Statistics
Matches: 97, Mismatches: 24, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
35 69 0.71
37 2 0.02
38 2 0.02
40 23 0.24
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (35 bp):
GTTGGTTTATCCAACTAGCACTGGGCGCAATTATC
Found at i:101694151 original size:74 final size:75
Alignment explanation
Indices: 101693982--101694189 Score: 276
Period size: 74 Copynumber: 2.8 Consensus size: 75
101693972 ATCGTTGGTT
* * * *
101693982 TATCCAACTAGCGCTAAGTGCAATTATCGTTAGTTTATCCAACTAGAGCTGGGC-CTACAATTAT
1 TATCCAACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTC-ACAATTAT
*
101694046 TATCGTCGATA
65 TATCATCGATA
*
101694057 TATTCAACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAG-GCTGGGCTCACAATTATT
1 TATCCAACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATT
*
101694121 ATCATCGGTA
66 ATCATCGATA
* * * * * *
101694131 TATCCGACTAGTACTGGGTGCAAATATTGCTGGTTTATCCAACTAGAGTTGGGCTCACA
1 TATCCAACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACA
101694190 TTCAATATCG
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
74 64 0.55
75 53 0.45
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (75 bp):
TATCCAACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATT
ATCATCGATA
Found at i:101694176 original size:35 final size:35
Alignment explanation
Indices: 101693937--101694176 Score: 135
Period size: 35 Copynumber: 6.6 Consensus size: 35
101693927 TGGGTACACA
* * *
101693937 ATTGTTGGTTTATCCGACTAGCACTGGGCGCAATT
1 ATTGTTGGTTTATCCAACTAGCACTGGGTGCAAAT
* * ** *
101693972 ATCGTTGGTTTATCCAACTAGCGCTAAGTGCAATT
1 ATTGTTGGTTTATCCAACTAGCACTGGGTGCAAAT
* * *
101694007 ATCGTTAGTTTATCCAACTAG-AGCTGGGCCTACAATTATT
1 ATTGTTGGTTTATCCAACTAGCA-CTGGG--TGCAA--A-T
* * * * * *
101694047 ATCGTCGATATATTCAACTAGCACTAGGTGCAAAT
1 ATTGTTGGTTTATCCAACTAGCACTGGGTGCAAAT
* *
101694082 ATCGTTGGTTTATCCAACTAG-GCTGGGCT-CACAATT
1 ATTGTTGGTTTATCCAACTAGCACTGGG-TGCA-AA-T
* * * *
101694118 ATTATCATCGGTATATCCGACTAGTACTGGGTGCAAAT
1 ATTGT--T-GGTTTATCCAACTAGCACTGGGTGCAAAT
*
101694156 ATTGCTGGTTTATCCAACTAG
1 ATTGTTGGTTTATCCAACTAG
101694177 AGTTGGGCTC
Statistics
Matches: 156, Mismatches: 34, Indels: 30
0.71 0.15 0.14
Matches are distributed among these distances:
34 6 0.04
35 86 0.55
36 6 0.04
37 4 0.03
38 9 0.06
39 16 0.10
40 28 0.18
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (35 bp):
ATTGTTGGTTTATCCAACTAGCACTGGGTGCAAAT
Found at i:101696558 original size:40 final size:37
Alignment explanation
Indices: 101696457--101696590 Score: 159
Period size: 35 Copynumber: 3.6 Consensus size: 37
101696447 TTTCTCATTA
* * *
101696457 AAATACTATACCTACATTTTACAACTCGGTATGG--G
1 AAATACCATACCTACATTTCACAACTCAGTATGGATG
* **
101696492 AAATGCCATACCTACATTTCTTAACTCAGTATGGATTTG
1 AAATACCATACCTACATTTCACAACTCAGTATGGA--TG
101696531 ATAATACCATACCTACATTTCACAACTCAGTATGGATG
1 A-AATACCATACCTACATTTCACAACTCAGTATGGATG
101696569 --ATACCATACCTACATTTCACAA
1 AAATACCATACCTACATTTCACAA
101696591 TTTACCATGG
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
35 50 0.59
38 2 0.02
39 2 0.02
40 31 0.36
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.31
Consensus pattern (37 bp):
AAATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:101696601 original size:35 final size:35
Alignment explanation
Indices: 101696534--101696601 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
101696524 GGATTTGATA
**
101696534 ATACCATACCTACATTTCACAACTCAGTATGGATG
1 ATACCATACCTACATTTCACAACTCACCATGGATG
* *
101696569 ATACCATACCTACATTTCACAATTTACCATGGA
1 ATACCATACCTACATTTCACAACTCACCATGGA
101696602 ACAACCATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.29
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCACCATGGATG
Found at i:101696601 original size:75 final size:75
Alignment explanation
Indices: 101696458--101696601 Score: 173
Period size: 75 Copynumber: 1.9 Consensus size: 75
101696448 TTCTCATTAA
* * * * ** **
101696458 AATACTATACCTACATTTTACAACTCGGTATGGGAAATGCCATACCTACATTTCTTAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACTCACCA
101696523 TGGATTTGAT
66 TGGATTTGAT
* * *
101696533 AATACCATACCTACATTTCACAACTCAGTAT-GGATGATACCATACCTACATTTCACAATTTACC
1 AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACAACTCACC
101696597 ATGGA
65 ATGGA
101696602 ACAACCATGG
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
74 3 0.05
75 54 0.95
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (75 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACTCACCA
TGGATTTGAT
Found at i:101698454 original size:13 final size:13
Alignment explanation
Indices: 101698436--101698474 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
101698426 GCCACTTGGC
101698436 TGTGTGAGCCACA
1 TGTGTGAGCCACA
101698449 TGTGTGAGCCACA
1 TGTGTGAGCCACA
101698462 TG-GTCGAGCCACA
1 TGTGT-GAGCCACA
101698475 CGGGAATGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 2 0.08
13 23 0.92
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.21
Consensus pattern (13 bp):
TGTGTGAGCCACA
Found at i:101703070 original size:28 final size:28
Alignment explanation
Indices: 101703037--101703109 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
101703027 AGCCTATTTC
**
101703037 TTTATAATTTTTAAATGATTAAATTGAA
1 TTTATAATTTTTAAATGATTAAATCAAA
*
101703065 TTTAT-ATAATTTAAATGATTAAATCAAA
1 TTTATAAT-TTTTAAATGATTAAATCAAA
*
101703093 TTTAAAATTTTATAAAT
1 TTTATAATTTT-TAAAT
101703110 TACAAAGAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 2 0.05
28 28 0.76
29 7 0.19
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (28 bp):
TTTATAATTTTTAAATGATTAAATCAAA
Done.